genome.fa.s1129.2.7.7.80.10.50.1000.38.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  38  of  89  ( 10573 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8285235--8285274	21	1.9	21	89	0	62	17	20	27	35	1.95
8293180--8293220	12	3.5	12	93	3	66	87	9	2	0	0.62
8293179--8293253	15	4.7	16	76	14	66	85	6	4	4	0.83
8293179--8293253	1	75.0	1	72	0	51	85	6	4	4	0.83
8308789--8308858	35	2.0	35	81	10	81	30	14	27	28	1.95
8308879--8308919	19	2.2	19	90	0	64	31	12	31	24	1.92
8310418--8310526	41	2.7	41	81	1	121	37	13	16	32	1.88
8310418--8310535	19	5.9	19	69	13	76	37	13	15	33	1.86
8311669--8311756	31	2.8	30	81	3	95	29	13	27	29	1.94
8313481--8313554	25	3.1	24	86	7	98	31	22	20	25	1.98
8313489--8313562	25	3.0	25	86	5	98	31	20	22	25	1.98
8324491--8324563	24	3.0	24	80	4	85	28	24	21	24	1.99
8330110--8330142	2	16.5	2	100	0	66	48	0	0	51	1.00
8330602--8330749	59	2.5	59	91	2	226	37	18	11	32	1.87
8330781--8331151	54	6.9	54	87	1	510	32	18	17	30	1.94
8330781--8331151	162	2.3	162	90	0	582	32	18	17	30	1.94
8331565--8331616	20	2.6	20	84	0	68	28	23	17	30	1.97
8332481--8332599	42	2.8	42	93	0	202	18	19	16	45	1.86
8332789--8332883	22	4.0	23	76	20	79	51	1	0	47	1.07
8332800--8332850	14	3.4	14	79	15	57	45	0	0	54	0.99
8332877--8332970	29	3.2	28	80	16	95	45	0	2	52	1.12
8332986--8333155	90	1.9	86	81	9	200	50	4	0	45	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8333299--8333348	20	2.5	20	93	0	91	34	14	10	42	1.78
8333331--8333412	15	5.5	15	86	2	112	35	18	8	37	1.81
8333331--8333412	30	2.8	30	92	1	130	35	18	8	37	1.81
8333331--8333418	45	2.0	44	90	2	140	32	19	7	39	1.81
8336596--8336656	29	2.1	29	84	0	77	24	18	8	49	1.74
8336915--8337048	59	2.3	59	89	0	205	35	17	12	34	1.87
8337095--8337683	54	10.9	54	85	5	678	32	18	18	29	1.95
8355869--8356028	65	2.5	65	86	5	209	28	18	23	30	1.97
8361617--8361684	25	2.7	26	77	8	70	51	14	1	32	1.52
8362010--8362306	60	4.9	60	89	0	441	30	22	12	34	1.91
8366128--8366205	28	2.9	26	74	20	72	67	10	1	20	1.27
8366285--8366323	20	2.0	20	100	0	78	66	7	5	20	1.36
8366713--8366765	21	2.5	21	75	6	54	37	13	18	30	1.89
8366668--8366778	42	2.6	42	79	10	120	33	15	22	28	1.94
8369704--8369773	20	3.3	21	70	16	63	42	2	4	50	1.37
8369747--8369910	89	1.8	89	93	2	285	44	6	10	38	1.65
8370600--8370803	73	2.8	73	95	2	360	40	17	12	29	1.87
8383425--8383579	4	38.8	4	65	23	51	71	1	3	23	1.10
8383406--8383541	22	6.4	21	68	23	63	72	0	5	21	1.08
8383380--8383459	22	3.4	23	76	10	65	72	0	8	18	1.10
8383427--8383531	50	2.2	48	80	14	110	73	0	4	20	1.07
8383427--8383548	47	2.6	45	79	15	122	73	1	4	20	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8383490--8383630	37	3.5	39	73	18	119	67	2	2	27	1.16
8383496--8383572	33	2.3	34	84	13	97	67	1	2	28	1.12
8383425--8383559	26	5.2	25	69	16	87	73	1	4	20	1.09
8383468--8383612	44	3.4	43	77	14	122	68	2	2	26	1.14
8383470--8383650	33	5.6	34	69	19	77	67	3	2	27	1.18
8384852--8385058	84	2.5	84	83	2	263	27	18	24	29	1.98
8385135--8385243	36	3.1	36	80	10	134	41	15	19	23	1.90
8385143--8385236	34	2.7	35	86	6	120	45	17	19	18	1.85
8385455--8385509	21	2.6	21	91	0	83	43	10	21	23	1.84
8385477--8385664	73	2.6	73	85	7	224	39	12	21	26	1.89
8385625--8385701	37	2.1	36	92	2	127	41	9	23	25	1.84
8385567--8385773	109	1.9	109	86	4	292	40	12	19	27	1.88
8386910--8387259	183	1.9	183	94	0	610	29	21	21	28	1.98
8391246--8391337	33	2.8	33	78	17	109	76	1	2	20	0.96
8391246--8391381	9	15.9	8	70	16	69	73	1	2	22	1.02
8391243--8391401	45	3.5	48	76	19	121	71	1	3	24	1.08
8391243--8391349	19	5.8	17	72	20	65	74	0	3	20	1.02
8391276--8391401	45	2.8	42	82	12	144	70	1	3	24	1.10
8391289--8391502	81	2.6	79	71	16	188	68	3	2	25	1.18
8395559--8396063	54	9.4	54	88	2	701	35	19	18	26	1.95
8402603--8403160	54	10.4	54	88	2	737	36	20	17	26	1.94
8408171--8408232	24	2.6	25	76	5	65	22	8	12	56	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8408239--8408279	22	1.9	21	85	14	57	21	7	14	56	1.63
8412817--8412869	18	2.9	18	82	0	70	49	7	11	32	1.67
8415688--8415714	14	1.9	14	100	0	54	66	3	0	29	1.09
8415871--8415901	14	2.3	14	94	5	55	54	12	0	32	1.38
8415899--8415927	3	9.7	3	100	0	58	68	0	0	31	0.89
8421459--8421483	7	3.6	7	100	0	50	48	0	0	52	1.00
8423179--8423211	17	1.9	17	100	0	66	36	0	9	54	1.32
8425109--8425143	2	17.5	2	100	0	70	48	0	0	51	1.00
8436579--8436695	19	7.5	15	67	26	50	70	1	19	7	1.20
8436594--8436711	8	13.9	8	71	26	75	71	1	19	7	1.19
8436675--8436724	16	3.2	16	85	2	66	78	0	14	8	0.97
8436588--8436724	17	8.1	16	70	20	75	72	1	18	7	1.16
8436583--8436719	61	2.3	59	79	14	145	71	1	19	7	1.17
8438042--8438188	51	2.9	51	98	0	285	29	16	29	24	1.96
8438202--8438356	55	2.8	55	94	0	265	31	17	23	27	1.97
8439680--8439710	2	15.5	2	100	0	62	48	0	0	51	1.00
8449793--8449890	48	2.1	45	88	5	142	48	17	14	19	1.80
8463331--8463358	7	4.0	7	100	0	56	57	28	0	14	1.38
8463483--8463522	18	2.3	17	87	12	55	70	2	0	27	1.01
8467407--8467561	77	2.0	79	86	5	217	43	5	11	39	1.63
8469521--8469551	15	2.1	15	93	0	53	25	22	19	32	1.97
8478311--8478368	21	2.8	21	91	0	98	31	20	20	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8478400--8478448	15	3.3	15	85	2	64	36	22	18	22	1.95
8478737--8478776	21	1.9	21	89	0	62	17	22	20	40	1.92
8478732--8478784	21	2.5	21	78	0	61	20	24	20	33	1.97
8478774--8478945	20	8.6	20	81	3	186	36	18	20	25	1.95
8478774--8478945	41	4.3	41	88	3	226	36	18	20	25	1.95
8478774--8478945	61	2.8	61	82	6	215	36	18	20	25	1.95
8478912--8479000	20	4.4	20	78	13	83	25	19	15	39	1.91
8479863--8479916	24	2.2	24	90	6	83	22	16	20	40	1.91
8482426--8482480	19	2.8	20	83	2	67	38	18	21	21	1.94
8482453--8482546	33	2.8	33	95	0	161	44	18	24	12	1.84
8482453--8482550	19	5.7	18	67	24	68	44	18	24	12	1.84
8482551--8482592	19	2.2	19	86	0	57	19	11	19	50	1.78
8482580--8482619	14	2.9	14	84	0	53	12	20	20	47	1.81
8482742--8482778	14	2.6	14	91	0	65	45	21	0	32	1.52
8484604--8484697	33	2.8	33	86	1	125	46	25	19	8	1.77
8484604--8484664	19	3.5	18	74	21	67	42	22	24	9	1.84
8484707--8484744	20	1.9	20	100	0	76	5	15	28	50	1.66
8484859--8485136	94	3.1	93	86	7	401	47	19	12	20	1.81
8486825--8486920	20	5.2	20	70	23	75	46	17	22	12	1.82
8486872--8486925	14	3.5	14	73	22	54	46	22	22	9	1.80
8486851--8486925	33	2.2	34	90	2	116	44	22	22	10	1.84
8486926--8487018	33	2.8	33	85	1	114	10	19	24	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8487567--8487822	20	12.6	20	72	7	149	27	19	17	35	1.94
8487547--8487822	41	6.8	41	75	5	181	27	19	17	34	1.95
8487569--8487864	162	1.8	163	91	0	486	29	19	18	33	1.95
8487691--8487845	61	2.6	60	70	2	148	29	19	18	32	1.95
8487819--8487864	21	2.2	21	88	0	65	36	17	28	17	1.92
8492443--8492477	17	2.0	18	88	5	54	51	8	14	25	1.70
8493661--8493709	15	3.3	15	85	0	71	38	16	14	30	1.88
8508145--8508190	20	2.3	19	85	14	58	50	8	15	26	1.73
8519637--8519680	19	2.3	19	100	0	88	9	43	11	36	1.72
8532300--8532385	32	2.7	32	75	8	84	39	20	9	30	1.84

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89